annotate tool_dependencies.xml @ 0:1beee9ed43fd draft default tip

planemo upload commit 9cae80c2ab1d6c933382cd8584e2d51f3c3d305b-dirty

<?xml version="1.0"?>
<tool_dependency>
    <package name="mono" version="4.0">
       <repository changeset_revision="4912e4d532cd" name="package_mono_4_0" owner="iuc" prior_installation_required="True" toolshed="https://toolshed.g2.bx.psu.edu" />
    </package>
    <package name="morpheus" version="255">
        <install version="1.0">
            <actions>
                <action type="download_by_url">https://github.com/cwenger/Morpheus/releases/download/r255/Morpheus_mzML_Mono.tar.gz</action>
                <action type="set_environment_for_install">
                    <repository changeset_revision="4912e4d532cd" name="package_mono_4_0" owner="iuc" toolshed="https://toolshed.g2.bx.psu.edu">
                        <package name="mono" version="4.0" />
                    </repository>
                </action>
                <action type="move_directory_files">
                    <source_directory>.</source_directory>
                    <destination_directory>$INSTALL_DIR/</destination_directory>
                </action>
                <action type="set_environment">
                    <environment_variable action="set_to" name="MORPHEUS_PATH">$INSTALL_DIR</environment_variable>
                    <environment_variable action="prepend_to" name="PATH">$ENV[MONO_ROOT_PATH]/bin</environment_variable>
                    <environment_variable action="prepend_to" name="LD_LIBRARY_PATH">$ENV[MONO_ROOT_PATH]/lib</environment_variable>
                    <environment_variable action="set_to" name="MONO_ROOT_PATH">$ENV[MONO_ROOT_PATH]</environment_variable>
                </action>
            </actions>
        </install>
        <readme>
            Install Galaxy package application for Morpheus release 255 for use on linux 
            Must be executed with mono:
            mono ${MORPHEUS_PATH}/morpheus_mzml_mono_cl.exe -d input.mzML -db searchDB.fasta
            https://github.com/cwenger/Morpheus/
        </readme>
    </package>
</tool_dependency>